Pinned Repositories
advent-of-code
Python solutions to https://adventofcode.com/
AIMsetfinder
AIMsetfinder is a collection of Rscripts to identify sets of Ancestry Informative Markers (AIMs), that minimize the logloss error of a naive Bayes classifier.
Algorithms-Part1
Completed assignments for Princeton's Algorithms Part 1 course on Coursera
AMRE
collection of scripts for LCWG data of Setophaga ruticilla
amre-mc
Analysis scripts for American Redstart migratory connectivity project
bcrf-climate
Bioinformatics and analysis scripts for Brown-capped Rosy-Finch climate change project
connectivity-book
Vignette on using the R package Mignette for creating migratory networks
geneticDrift
genetic drift simulation with Shiny
metabarcoding-pipeline
Summarizing metabarcoding data from FASTQ files to viz
WGSassign
Population assignment from genotype likelihoods for low-coverage whole-genome sequencing data
mgdesaix's Repositories
mgdesaix/WGSassign
Population assignment from genotype likelihoods for low-coverage whole-genome sequencing data
mgdesaix/bcrf-climate
Bioinformatics and analysis scripts for Brown-capped Rosy-Finch climate change project
mgdesaix/AIMsetfinder
AIMsetfinder is a collection of Rscripts to identify sets of Ancestry Informative Markers (AIMs), that minimize the logloss error of a naive Bayes classifier.
mgdesaix/amre-mc
Analysis scripts for American Redstart migratory connectivity project
mgdesaix/connectivity-book
Vignette on using the R package Mignette for creating migratory networks
mgdesaix/metabarcoding-pipeline
Summarizing metabarcoding data from FASTQ files to viz
mgdesaix/amre-adaptation
Bioinformatics and analysis scripts for American Redstart (Setophaga ruticilla) adaptation across the annual cycle research
mgdesaix/bioconda-recipes
Conda recipes for the bioconda channel.
mgdesaix/bioinf-scripts
collection of bioinformatics related scripts for running on the Summit cluster with slurm
mgdesaix/BZ335-DataAnalysis
shiny app created for students to use on data analysis project
mgdesaix/ConGen-2024
mgdesaix/covid-19-analysis
An analysis of the spread of coronavirus
mgdesaix/covid-19-data
An ongoing repository of data on coronavirus cases and deaths in the U.S.
mgdesaix/CSU-con-gen-comp-2020
Course website repository for Advanced Computing and Bioinformatics for Conservation Genomics at Colorado State University, Spring Semester 2020
mgdesaix/dadi_pipeline
An accessible and flexible tool for fitting demographic models with dadi using custom or published models (available here), conducting goodness of fit tests, and plotting.
mgdesaix/desaix-website
Personal website of Matt DeSaix
mgdesaix/disease-modeling
graph-theoretic approach to modeling implemented in shiny
mgdesaix/gradientDescent
Learning stochastic gradient descent through Shiny
mgdesaix/gscramble
pedigree-aware sampling with replacement from linked markers
mgdesaix/gscramble-paper-pigs
Feral Swine data and scripts used in the gscramble publication
mgdesaix/hugo-apero
Apéro is a Hugo theme for personal websites. A Hugo theme you'll want to hang out with :milky_way: . This is the source for the theme files to install.
mgdesaix/hugo-apero-docs
Apéro is a Hugo theme for personal websites. This is the documentation site, made with the theme :lemon:
mgdesaix/mignette
R package for creating migratory network models
mgdesaix/NNPopAssign
Neural network for population assignment
mgdesaix/pcangsd
Framework for analyzing low depth NGS data in heterogeneous populations using PCA.
mgdesaix/quanty
What the Package Does (One Line, Title Case)
mgdesaix/shell-scripting-homework
mgdesaix/starter-hugo-academic
🎓 Hugo Academic Theme 创建一个学术网站. Easily create a beautiful academic résumé or educational website using Hugo, GitHub, and Netlify.
mgdesaix/vcfgl_ad
vcfgl: A tool for simulating genotype likelihoods from VCF file GT tags (e.g. from msprime)
mgdesaix/WGSassign-manuscript-data
These are the script and data files corresponding to the WGSassign software manuscript